RESEARCH PAPER: Plagl1 and Lrrc58 control mammalian body size by triggering target-directed microRNA degradation of miR-322 and miR-503
By LaVigne et al., and Joshua Mendell
➡️ https://genesdev.cshlp.org/content/40/3-4/215.full

Josh Mendell HHMI
#TDMD #RNAdecay #miRNA #triggerRNA #development

#Dis3L2 #RNA #RNADecay
Structural and mechanistic insights into Dis3L2 mediated degradation of structured RNA
Rute G. Matos, Ankur Garg, Susana M. Costa, Patricia Pereira, Cecilia M. Arraiano, Leemor Joshua-Tor, Sandra C. Viegas
www.biorxiv.org/content/10.1...

RNA Dynamics Regulate Transcriptional Condensate Vivacity to Drive Gene Coordination Transcriptional condensates (TCs), enriched with Mediator, orchestrate super-enhancer (SE)-driven gene expression critical for cell identity. However, how their dynamic physical properties shape trans...

#RNA #Condensate #RNAExosome #RNADecay

www.biorxiv.org/content/10.1...

RNA-Degrading Exosome Complexes: Molecular Mechanisms and Structural Insights | Annual Reviews The RNA exosome is a conserved multiprotein complex essential for 3′-to-5′ RNA degradation in eukaryotic cells. In the cytoplasm, the exosome participates in messenger RNA surveillance and decay, whil...

Nice!
#RNAExosome #Structure #Review #RNADecay #RNA #RNAsky

www.annualreviews.org/content/jour...

RNA methylation in retrotransposon control. #RNAmethylation #6mA #LTR #L1#ERV #RetrotransposonControl #RNAdecay #RNAstability #GenomeRegulation #CellularDifferentiation @cp-trendsgenetics.bsky.social‬
www.cell.com/trends/genet...

Sad that #RNA2025 is almost over? Join us in August in the UK for another fun meeting on RNA! #RNAsky #RNAdecay

We identified 3 novel proteins at the ESB that negatively regulate genes co-transcribed with the active-VSG through specialised and spatially regulated RNA decay.
#RNA #condensates #3Dgenome #RNAdecay

Identification of human pathways acting on nuclear non-coding RNAs using the Mirror forward genetic approach - Nature Communications Human pathways acting on nuclear ncRNAs have been refractory to forward genetics. Here, the authors develop a forward genetic approach that identifies such pathways and show DDX59 is required for mino...

A tour de force. Wonderful stuff! Congrats!
#ncRNA #MALAT1 #RNAExosome #RNaseP #NEXT #DDX59 #RNADecay #RNA #RNAsky

www.nature.com/articles/s41...

TRAMP assembly alters the conformation and RNA binding of Mtr4 and Trf4-Air2 | PNAS The TRAMP complex contains two enzymatic activities essential for RNA processing upstream of the nuclear exosome. Within TRAMP, RNA is 3′ polyadeny...

Nice work from Sean Johnson on "The Molecular Mechanisms of RNA Processing in the TRAMP RNA Surveillance Complex presented today at #RNASociety #Emory GA RNA Salon! @rnasociety.bsky.social #RNA #TRAMP #RNAExosome #RNADecay #Mtr4

www.pnas.org/doi/10.1073/...

Aging-dependent dysregulation of EXOSC2 is maintained in cancer as a dependency Reprogramming of aged donor tissue cells into induced pluripotent stem cells (A-iPSC) preserved the epigenetic memory of aged-donor tissue, defined as genomic instability and poor tissue differentiati...

Interesting!
#RNAExosome #EXOSC2 #RNADecay #RNAprocessing #Aging #Cancer

www.biorxiv.org/content/10.1...

Detection of endogenous Halo-tagged IRE1 and non-tagged Lamin B1 by confocal microscopy. U2OS HaloTag cells, containing a C-terminal HaloTag into the endogenous IRE1 gene locus, were examined. Cells were cultured in the presence of Janelia 646 HaloTag ligand (green), fixed, stained with anti-Lamin-B1 (red) antibodies, and analyzed by confocal microscopy. Left: Merge field of IRE1 (red), Lamin B1 (green), and nucleus (blue) is shown. Scale bar = 5 μm. Right: Close up of the nuclear envelope where each channel is shown separately and merged. Scale bar = 2 μm. Pixel size = 48 nm. Representative image of two independent experiments shown.

ER-resident IRE1 plays a role in #cancer development via enzymatic activation of XPB1 TFs and regulated #RNAdecay. This study shows that some cancer cells also have an unexpected nonenzymatic dependency on IRE1 to promote #CellCycle progression & tumor growth @plosbiology.org 🧪 plos.io/3EaNFX4

Detection of endogenous Halo-tagged IRE1 and non-tagged Lamin B1 by confocal microscopy. U2OS HaloTag cells, containing a C-terminal HaloTag into the endogenous IRE1 gene locus, were examined. Cells were cultured in the presence of Janelia 646 HaloTag ligand (green), fixed, stained with anti-Lamin-B1 (red) antibodies, and analyzed by confocal microscopy. Left: Merge field of IRE1 (red), Lamin B1 (green), and nucleus (blue) is shown. Scale bar = 5 μm. Right: Close up of the nuclear envelope where each channel is shown separately and merged. Scale bar = 2 μm. Pixel size = 48 nm. Representative image of two independent experiments shown.

ER-resident IRE1 plays a role in #cancer development via enzymatic activation of XPB1 TFs and regulated #RNAdecay. This study shows that some cancer cells also have an unexpected nonenzymatic dependency on IRE1 to promote #CellCycle progression & tumor growth @plosbiology.org 🧪 plos.io/3EaNFX4

Detection of endogenous Halo-tagged IRE1 and non-tagged Lamin B1 by confocal microscopy. U2OS HaloTag cells, containing a C-terminal HaloTag into the endogenous IRE1 gene locus, were examined. Cells were cultured in the presence of Janelia 646 HaloTag ligand (green), fixed, stained with anti-Lamin-B1 (red) antibodies, and analyzed by confocal microscopy. Left: Merge field of IRE1 (red), Lamin B1 (green), and nucleus (blue) is shown. Scale bar = 5 μm. Right: Close up of the nuclear envelope where each channel is shown separately and merged. Scale bar = 2 μm. Pixel size = 48 nm. Representative image of two independent experiments shown.

ER-resident IRE1 plays a role in #cancer development via enzymatic activation of XPB1 TFs and regulated #RNAdecay. This study shows that some cancer cells also have an unexpected nonenzymatic dependency on IRE1 to promote #CellCycle progression & tumor growth @plosbiology.org 🧪 plos.io/3EaNFX4

A nuclear RNA degradation code is recognized by PAXT for eukaryotic transcriptome surveillance Soles et al. demonstrate that the combination of a 5′ splice site and a poly(A) junction constitutes a nuclear RNA degradation code that targets RNAs for degradation by the PAXT adaptor and the RNA ex...

A nuclear RNA degradation code is recognized by PAXT for eukaryotic transcriptome surveillance: Molecular Cell www.cell.com/molecular-ce...

#RNAsky #RNAbiology #RNAdecay

Great work! #RNAExosome #Assembly #RNADecay #RNA #Mammalian

Hierarchical assembly and functional resilience of the mammalian RNA exosome
Tsimafei Navalayeu...Stefan L. Ameres
www.biorxiv.org/content/10.1...

The nuclear exosome co-factor MTR4 shapes the transcriptome for meiotic initiation Nature Communications - Nuclear RNA decay regulates gene expression in cultured cells, but its role in animals is largely unclear. Here, authors found that the nuclear exosome co-factor MTR4...

Cool! #MTR4 #RNADecay #RNA #RNAExosome
The #nuclear #exosome co-factor #MTR4 shapes the #transcriptome for #meiotic initiation

Li Zhang, Jianshu Wang, Zhidong Tang, Zhen Lin, Ruibao Su, Naijing Hu, Yao Tang, Gaoxiang Ge, Jing Fan, Ming-Han Tong, Yuanchao Xue, Yu Zhou & Hong Cheng
rdcu.be/ed5WM

Defining the roles of the Integrator, NEXT, and nuclear exosome complexes in Drosophila oogenesis Nuclear RNA homeostasis depends on the balance of transcription, RNA processing, degradation, and transport between the nucleus and cytoplasm. RNA degradation directed by the Integrator, nuclear exoso...

Interesting! #RNADecay #RNAExosome #RNA #ncRNA

Defining the roles of the #Integrator, #NEXT, and #nuclear #exosome complexes in #Drosophila #oogenesis
Yongjin Lee, Adriano Biasini, Cindy Tipping, Seong Hyeon Hong, Phillip Zamore

www.biorxiv.org/content/10.1...

Cytoplasmic mRNA decay and quality control machineries in eukaryotes - Nature Reviews Genetics In this Review, Dowdle and Lykke-Andersen discuss advances in our understanding of the machinery and mechanisms involved in the control of cytoplasmic mRNA decay and comment on implications for the de...

Nice!
#RNAdecay #mRNAdecay #QualityControl #Cytoplasm #RNAsky #RNA

www.nature.com/articles/s41...

DSIF factor Spt5 coordinates transcription, maturation and exoribonucleolysis of RNA polymerase II transcripts - Nature Communications The critical events in transcription termination of RNA polymerase II (Pol II) remain not fully understood. Here, the authors find that the transcription factor Spt5 enhances the activity of RNA exonu...

Cool! Congrats!

#Spt5 #Xrn2 #PolII #RNADecay #RNA #RNAsky

www.nature.com/articles/s41...

#RNA #RNAdecay #XRN1 #Stress #RNAsky
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RNA 3′end tailing safeguards cells against products of pervasive transcription termination - Nature Communications Pervasive transcription generates numerous unadenylated RNAs, usually degraded by the NEXT/nuclear exosome pathway. Here, the authors show that, upon NEXT inactivation, these RNAs are removed by compe...

Interesting! #RNADecay #NEXT #PAXT #RNAExosome #RNA
www.nature.com/articles/s41...

Critical role of Spatio-Temporally Regulated Maternal RNAs in Zebrafish Embryogenesis The maternal-to-zygotic transition shifts regulatory control from maternal to zygotic messenger RNAs (mRNA) through maternal mRNA degradation. While temporal aspects of maternal mRNA decay are known, ...

#RNADecay #RNA
www.biorxiv.org/content/10.1...